HEADER OXIDOREDUCTASE 27-JAN-15 5AG1 TITLE DYP-TYPE PEROXIDASE OF AURICULARIA AURICULA-JUDAE (AAUDYPI) WITH MESO- TITLE 2 NITRATED HEME COMPND MOL_ID: 1; COMPND 2 MOLECULE: DYE-DECOLORIZING PEROXIDASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: DYP-TYPE PEROXIDASE DOMAIN, RESIDUES 64-509; COMPND 5 EC: 1.11.1.19; COMPND 6 OTHER_DETAILS: INCLUDING THE TWO PROTEIN CHAINS, THE CO- FACTOR COMPND 7 DELTA-MESO NITROHEME, CARBOHYDRATE MOLECULES, CACODYLATE, FORMATE, COMPND 8 GLYCEROL, NITRITE, AND WATER MOLECULES. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AURICULARIA AURICULA-JUDAE; SOURCE 3 ORGANISM_COMMON: EAR FUNGUS; SOURCE 4 ORGANISM_TAXID: 29892; SOURCE 5 STRAIN: SXM9-C021; SOURCE 6 OTHER_DETAILS: GERMAN COLLECTION OF MICROORGANISMS (DSM), ACCESS SOURCE 7 NUMBER DSM 11326 KEYWDS OXIDOREDUCTASE, DYP, FUNGAL, HEME, GLYCOPROTEIN, NITRATION EXPDTA X-RAY DIFFRACTION AUTHOR E.STRITTMATTER,K.PIONTEK,D.A.PLATTNER REVDAT 3 10-JAN-24 5AG1 1 HETSYN REVDAT 2 29-JUL-20 5AG1 1 COMPND REMARK HETNAM LINK REVDAT 2 2 1 SITE ATOM REVDAT 1 02-MAR-16 5AG1 0 JRNL AUTH E.STRITTMATTER,K.PIONTEK,D.A.PLATTNER JRNL TITL CRYSTALLOGRAPHIC TRAPPING OF A COVALENTLY MODIFIED HEME IN A JRNL TITL 2 DYE-DECOLORIZING PEROXIDASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.57 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 71625 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3770 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4603 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.49 REMARK 3 BIN R VALUE (WORKING SET) : 0.2910 REMARK 3 BIN FREE R VALUE SET COUNT : 242 REMARK 3 BIN FREE R VALUE : 0.3150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6604 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 243 REMARK 3 SOLVENT ATOMS : 893 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.33000 REMARK 3 B22 (A**2) : 0.17000 REMARK 3 B33 (A**2) : 0.38000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.65000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.135 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.093 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.131 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7097 ; 0.003 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9708 ; 0.674 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 910 ; 6.781 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 292 ;37.936 ;25.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 994 ;11.719 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;22.795 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1086 ; 0.051 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5521 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3616 ; 0.862 ; 1.918 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4534 ; 1.343 ; 3.231 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3481 ; 1.212 ; 2.048 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES REFINED INDIVIDUALLY PROTEIN WAS TREATED REMARK 3 WITH PROLI NONOATE AND PERACETIC ACID PRIOR TO CRYSTALLIZATION. REMARK 4 REMARK 4 5AG1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1290062853. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.939 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75411 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 44.570 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.96 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.51000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4AU9 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.17 M SODIUM ACETATE TRIHYDRATE, REMARK 280 0.085 M SODIUM CACODYLATE PH 6.5, 25% (W/V) PEG 8000, 15% (V/V) REMARK 280 GLYCEROL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 23.39000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER B 3 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 2306 O HOH A 2418 2.12 REMARK 500 O ALA B 288 O HOH B 2313 2.14 REMARK 500 OG1 THR A 96 O HOH A 2167 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 285 -9.48 89.01 REMARK 500 ARG A 311 -125.16 49.49 REMARK 500 TRP A 377 -65.08 -109.18 REMARK 500 PHE B 178 -53.01 -122.23 REMARK 500 THR B 265 81.66 -155.64 REMARK 500 TYR B 285 -6.23 88.66 REMARK 500 ARG B 311 -122.14 51.24 REMARK 500 TRP B 377 -65.10 -109.96 REMARK 500 ASN B 415 79.79 -158.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A2004 DISTANCE = 6.22 ANGSTROMS REMARK 525 HOH A2248 DISTANCE = 5.82 ANGSTROMS REMARK 525 HOH B2138 DISTANCE = 6.34 ANGSTROMS REMARK 525 HOH B2410 DISTANCE = 5.85 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 DELTA-MESO NITROHEME (N7H): IRON PROTOPORPHYRIN IX WITH A REMARK 600 NITRO GROUP AT THE DELTA-MESO CARBON. REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 N7H A1458 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 304 NE2 REMARK 620 2 N7H A1458 NA 83.9 REMARK 620 3 N7H A1458 NB 91.3 90.2 REMARK 620 4 N7H A1458 NC 96.4 178.8 88.7 REMARK 620 5 N7H A1458 ND 89.5 90.3 179.0 90.8 REMARK 620 6 NO2 A1460 O1 174.2 93.0 83.9 86.6 95.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 N7H B1456 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 304 NE2 REMARK 620 2 N7H B1456 NA 85.9 REMARK 620 3 N7H B1456 NB 92.0 90.3 REMARK 620 4 N7H B1456 NC 94.4 178.8 88.5 REMARK 620 5 N7H B1456 ND 88.8 90.4 179.0 90.8 REMARK 620 6 NO2 B1457 O1 174.2 90.7 83.2 88.9 96.0 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5AG0 RELATED DB: PDB REMARK 900 DYP-TYPE PEROXIDASE OF AURICULARIA AURICULA-JUDAE ( AAUDYPI) REMARK 900 CRYSTALLIZED AT PH 6.5 REMARK 999 REMARK 999 SEQUENCE REMARK 999 PRECURSOR SEQUENCE IN GENBANK WITH PROLONGED N-TERMINUS. DBREF 5AG1 A 3 448 UNP I2DBY1 I2DBY1_9HOMO 64 509 DBREF 5AG1 B 3 448 UNP I2DBY1 I2DBY1_9HOMO 64 509 SEQRES 1 A 446 SER LEU ASN THR ASP ASP ILE GLN GLY ASP ILE LEU VAL SEQRES 2 A 446 GLY MET HIS LYS GLN LYS GLN LEU PHE TYR PHE PHE ALA SEQRES 3 A 446 ILE ASN ASP PRO ALA THR PHE LYS THR HIS LEU ALA SER SEQRES 4 A 446 ASP ILE ALA PRO VAL VAL ALA SER VAL THR GLN LEU SER SEQRES 5 A 446 ASN VAL ALA THR GLN PRO LEU VAL ALA LEU ASN ILE ALA SEQRES 6 A 446 PHE SER ASN THR GLY LEU LEU ALA LEU GLY VAL THR ASP SEQRES 7 A 446 ASN LEU GLY ASP SER LEU PHE ALA ASN GLY GLN ALA LYS SEQRES 8 A 446 ASP ALA THR SER PHE LYS GLU SER THR SER SER TRP VAL SEQRES 9 A 446 PRO GLN PHE ALA GLY THR GLY ILE HIS GLY VAL ILE ILE SEQRES 10 A 446 LEU ALA SER ASP THR THR ASP LEU ILE ASP GLN GLN VAL SEQRES 11 A 446 ALA SER ILE GLU SER THR PHE GLY SER SER ILE SER LYS SEQRES 12 A 446 LEU TYR SER LEU SER ALA SER ILE ARG PRO GLY ASN GLU SEQRES 13 A 446 ALA GLY HIS GLU MET PHE GLY PHE LEU ASP GLY ILE ALA SEQRES 14 A 446 GLN PRO ALA ILE ASN GLY PHE ASN THR PRO LEU PRO GLY SEQRES 15 A 446 GLN ASN ILE VAL ASP ALA GLY VAL ILE ILE THR GLY ALA SEQRES 16 A 446 THR ASN ASP PRO ILE THR ARG PRO SER TRP ALA VAL GLY SEQRES 17 A 446 GLY SER PHE LEU ALA PHE ARG GLN LEU GLU GLN LEU VAL SEQRES 18 A 446 PRO GLU PHE ASN LYS TYR LEU LEU ASP ASN ALA PRO ALA SEQRES 19 A 446 GLY SER GLY SER LEU GLN ALA ARG ALA ASP LEU LEU GLY SEQRES 20 A 446 ALA ARG MET VAL GLY ARG TRP LYS SER GLY ALA PRO ILE SEQRES 21 A 446 ASP LEU THR PRO THR ALA ASP ASP PRO ALA LEU GLY ALA SEQRES 22 A 446 ASP ALA GLN ARG ASN ASN ASN PHE THR TYR SER HIS ALA SEQRES 23 A 446 GLY PHE ASP LEU GLY SER ASP GLN SER HIS CYS PRO PHE SEQRES 24 A 446 SER ALA HIS ILE ARG LYS THR ARG PRO ARG ALA ASP LEU SEQRES 25 A 446 GLY GLY SER LEU THR PRO PRO ASN LEU SER ALA GLY ALA SEQRES 26 A 446 ASN SER ILE MET ARG SER GLY ILE PRO TYR GLY PRO GLU SEQRES 27 A 446 VAL THR SER ALA GLU SER ALA SER ASN THR THR THR GLN SEQRES 28 A 446 GLU ARG GLY LEU ALA PHE VAL ALA TYR GLN ALA GLN LEU SEQRES 29 A 446 SER GLN GLY PHE HIS PHE LEU GLN GLN THR TRP ALA ASP SEQRES 30 A 446 ASN ALA ASN PHE PRO PRO GLY LYS THR PRO ALA THR VAL SEQRES 31 A 446 GLY LEU ASP PRO ILE ILE GLY GLN ASN ASN GLY GLN PRO SEQRES 32 A 446 ARG VAL VAL ASN GLY LEU LEU PRO SER ASN SER SER ALA SEQRES 33 A 446 SER LEU SER ILE PRO GLN PHE VAL VAL SER HIS GLY GLY SEQRES 34 A 446 GLU TYR PHE PHE SER PRO PRO ILE SER ALA ILE GLY GLY SEQRES 35 A 446 ARG LEU SER ALA SEQRES 1 B 446 SER LEU ASN THR ASP ASP ILE GLN GLY ASP ILE LEU VAL SEQRES 2 B 446 GLY MET HIS LYS GLN LYS GLN LEU PHE TYR PHE PHE ALA SEQRES 3 B 446 ILE ASN ASP PRO ALA THR PHE LYS THR HIS LEU ALA SER SEQRES 4 B 446 ASP ILE ALA PRO VAL VAL ALA SER VAL THR GLN LEU SER SEQRES 5 B 446 ASN VAL ALA THR GLN PRO LEU VAL ALA LEU ASN ILE ALA SEQRES 6 B 446 PHE SER ASN THR GLY LEU LEU ALA LEU GLY VAL THR ASP SEQRES 7 B 446 ASN LEU GLY ASP SER LEU PHE ALA ASN GLY GLN ALA LYS SEQRES 8 B 446 ASP ALA THR SER PHE LYS GLU SER THR SER SER TRP VAL SEQRES 9 B 446 PRO GLN PHE ALA GLY THR GLY ILE HIS GLY VAL ILE ILE SEQRES 10 B 446 LEU ALA SER ASP THR THR ASP LEU ILE ASP GLN GLN VAL SEQRES 11 B 446 ALA SER ILE GLU SER THR PHE GLY SER SER ILE SER LYS SEQRES 12 B 446 LEU TYR SER LEU SER ALA SER ILE ARG PRO GLY ASN GLU SEQRES 13 B 446 ALA GLY HIS GLU MET PHE GLY PHE LEU ASP GLY ILE ALA SEQRES 14 B 446 GLN PRO ALA ILE ASN GLY PHE ASN THR PRO LEU PRO GLY SEQRES 15 B 446 GLN ASN ILE VAL ASP ALA GLY VAL ILE ILE THR GLY ALA SEQRES 16 B 446 THR ASN ASP PRO ILE THR ARG PRO SER TRP ALA VAL GLY SEQRES 17 B 446 GLY SER PHE LEU ALA PHE ARG GLN LEU GLU GLN LEU VAL SEQRES 18 B 446 PRO GLU PHE ASN LYS TYR LEU LEU ASP ASN ALA PRO ALA SEQRES 19 B 446 GLY SER GLY SER LEU GLN ALA ARG ALA ASP LEU LEU GLY SEQRES 20 B 446 ALA ARG MET VAL GLY ARG TRP LYS SER GLY ALA PRO ILE SEQRES 21 B 446 ASP LEU THR PRO THR ALA ASP ASP PRO ALA LEU GLY ALA SEQRES 22 B 446 ASP ALA GLN ARG ASN ASN ASN PHE THR TYR SER HIS ALA SEQRES 23 B 446 GLY PHE ASP LEU GLY SER ASP GLN SER HIS CYS PRO PHE SEQRES 24 B 446 SER ALA HIS ILE ARG LYS THR ARG PRO ARG ALA ASP LEU SEQRES 25 B 446 GLY GLY SER LEU THR PRO PRO ASN LEU SER ALA GLY ALA SEQRES 26 B 446 ASN SER ILE MET ARG SER GLY ILE PRO TYR GLY PRO GLU SEQRES 27 B 446 VAL THR SER ALA GLU SER ALA SER ASN THR THR THR GLN SEQRES 28 B 446 GLU ARG GLY LEU ALA PHE VAL ALA TYR GLN ALA GLN LEU SEQRES 29 B 446 SER GLN GLY PHE HIS PHE LEU GLN GLN THR TRP ALA ASP SEQRES 30 B 446 ASN ALA ASN PHE PRO PRO GLY LYS THR PRO ALA THR VAL SEQRES 31 B 446 GLY LEU ASP PRO ILE ILE GLY GLN ASN ASN GLY GLN PRO SEQRES 32 B 446 ARG VAL VAL ASN GLY LEU LEU PRO SER ASN SER SER ALA SEQRES 33 B 446 SER LEU SER ILE PRO GLN PHE VAL VAL SER HIS GLY GLY SEQRES 34 B 446 GLU TYR PHE PHE SER PRO PRO ILE SER ALA ILE GLY GLY SEQRES 35 B 446 ARG LEU SER ALA MODRES 5AG1 ASN A 282 ASN GLYCOSYLATION SITE MODRES 5AG1 ASN A 349 ASN GLYCOSYLATION SITE MODRES 5AG1 ASN A 415 ASN GLYCOSYLATION SITE MODRES 5AG1 ASN B 282 ASN GLYCOSYLATION SITE MODRES 5AG1 ASN B 349 ASN GLYCOSYLATION SITE HET NAG C 1 14 HET NAG C 2 14 HET CAC A1449 5 HET GOL A1450 6 HET GOL A1451 6 HET GOL A1452 6 HET GOL A1453 6 HET NAG A1455 14 HET NAG A1456 14 HET N7H A1458 46 HET FMT A1459 3 HET NO2 A1460 3 HET CAC B1449 5 HET GOL B1450 6 HET GOL B1451 6 HET GOL B1452 6 HET GOL B1453 6 HET NAG B1454 14 HET NAG B1455 14 HET N7H B1456 46 HET NO2 B1457 3 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CAC CACODYLATE ION HETNAM GOL GLYCEROL HETNAM N7H DELTA-MESO NITROHEME HETNAM FMT FORMIC ACID HETNAM NO2 NITRITE ION HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN CAC DIMETHYLARSINATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 NAG 6(C8 H15 N O6) FORMUL 4 CAC 2(C2 H6 AS O2 1-) FORMUL 5 GOL 8(C3 H8 O3) FORMUL 11 N7H 2(C34 H29 FE N5 O6) FORMUL 12 FMT C H2 O2 FORMUL 13 NO2 2(N O2 1-) FORMUL 23 HOH *893(H2 O) HELIX 1 1 GLN A 10 VAL A 15 1 6 HELIX 2 2 ASP A 31 ASP A 42 1 12 HELIX 3 3 ILE A 43 VAL A 46 5 4 HELIX 4 4 SER A 49 SER A 54 1 6 HELIX 5 5 ASN A 55 GLN A 59 5 5 HELIX 6 6 SER A 69 LEU A 76 1 8 HELIX 7 7 ASP A 84 GLY A 90 1 7 HELIX 8 8 GLY A 90 ALA A 95 1 6 HELIX 9 9 THR A 96 LYS A 99 5 4 HELIX 10 10 SER A 101 TRP A 105 5 5 HELIX 11 11 VAL A 106 ALA A 110 5 5 HELIX 12 12 THR A 124 GLY A 140 1 17 HELIX 13 13 PRO A 155 ALA A 159 5 5 HELIX 14 14 ASP A 189 ILE A 193 5 5 HELIX 15 15 PRO A 205 VAL A 209 5 5 HELIX 16 16 LEU A 222 ALA A 234 1 13 HELIX 17 17 SER A 240 GLY A 254 1 15 HELIX 18 18 ASP A 270 ALA A 275 1 6 HELIX 19 19 ALA A 303 ARG A 309 1 7 HELIX 20 20 PRO A 310 GLY A 315 5 6 HELIX 21 21 ALA A 325 SER A 329 5 5 HELIX 22 22 THR A 342 ASN A 349 1 8 HELIX 23 23 GLY A 369 THR A 376 1 8 HELIX 24 24 PRO A 438 GLY A 443 1 6 HELIX 25 25 GLY A 444 ALA A 448 5 5 HELIX 26 26 GLN B 10 VAL B 15 1 6 HELIX 27 27 ASP B 31 ASP B 42 1 12 HELIX 28 28 ILE B 43 VAL B 46 5 4 HELIX 29 29 SER B 49 ASN B 55 1 7 HELIX 30 30 VAL B 56 GLN B 59 5 4 HELIX 31 31 SER B 69 LEU B 76 1 8 HELIX 32 32 ASP B 84 GLY B 90 1 7 HELIX 33 33 GLY B 90 ALA B 95 1 6 HELIX 34 34 THR B 96 LYS B 99 5 4 HELIX 35 35 SER B 101 TRP B 105 5 5 HELIX 36 36 VAL B 106 ALA B 110 5 5 HELIX 37 37 THR B 124 GLY B 140 1 17 HELIX 38 38 PRO B 155 ALA B 159 5 5 HELIX 39 39 ASP B 189 ILE B 193 5 5 HELIX 40 40 PRO B 205 VAL B 209 5 5 HELIX 41 41 LEU B 222 ALA B 234 1 13 HELIX 42 42 SER B 240 GLY B 254 1 15 HELIX 43 43 ASP B 270 ASP B 276 1 7 HELIX 44 44 ALA B 303 ARG B 309 1 7 HELIX 45 45 PRO B 310 GLY B 315 5 6 HELIX 46 46 ALA B 325 SER B 329 5 5 HELIX 47 47 THR B 342 ASN B 349 1 8 HELIX 48 48 GLY B 369 THR B 376 1 8 HELIX 49 49 PRO B 438 GLY B 443 1 6 HELIX 50 50 GLY B 444 ALA B 448 5 5 SHEET 1 AA 4 ALA A 63 PHE A 68 0 SHEET 2 AA 4 GLY A 116 SER A 122 -1 O VAL A 117 N ALA A 67 SHEET 3 AA 4 LYS A 21 ILE A 29 -1 O LYS A 21 N SER A 122 SHEET 4 AA 4 ILE A 143 SER A 152 -1 O SER A 144 N ALA A 28 SHEET 1 AB 2 ALA A 174 ILE A 175 0 SHEET 2 AB 2 ILE A 187 VAL A 188 1 N VAL A 188 O ALA A 174 SHEET 1 AC 2 MET A 331 ARG A 332 0 SHEET 2 AC 2 GLY A 356 GLN A 363 -1 O TYR A 362 N MET A 331 SHEET 1 AD 2 ILE A 335 TYR A 337 0 SHEET 2 AD 2 GLY A 356 GLN A 363 1 O GLY A 356 N TYR A 337 SHEET 1 AE 4 VAL A 426 SER A 436 0 SHEET 2 AE 4 SER A 212 GLN A 221 -1 O SER A 212 N SER A 436 SHEET 3 AE 4 GLY A 356 GLN A 363 -1 O LEU A 357 N LEU A 219 SHEET 4 AE 4 ILE A 335 TYR A 337 1 O ILE A 335 N ALA A 358 SHEET 1 AF 4 VAL A 426 SER A 436 0 SHEET 2 AF 4 SER A 212 GLN A 221 -1 O SER A 212 N SER A 436 SHEET 3 AF 4 GLY A 356 GLN A 363 -1 O LEU A 357 N LEU A 219 SHEET 4 AF 4 MET A 331 ARG A 332 -1 O MET A 331 N TYR A 362 SHEET 1 AG 2 ARG A 406 ASN A 409 0 SHEET 2 AG 2 SER A 419 ILE A 422 -1 O LEU A 420 N VAL A 408 SHEET 1 BA 4 VAL B 62 PHE B 68 0 SHEET 2 BA 4 GLY B 116 SER B 122 -1 O VAL B 117 N ALA B 67 SHEET 3 BA 4 LYS B 21 ILE B 29 -1 O LYS B 21 N SER B 122 SHEET 4 BA 4 ILE B 143 SER B 152 -1 O SER B 144 N ALA B 28 SHEET 1 BB 2 ALA B 174 ILE B 175 0 SHEET 2 BB 2 ILE B 187 VAL B 188 1 N VAL B 188 O ALA B 174 SHEET 1 BC 2 MET B 331 ARG B 332 0 SHEET 2 BC 2 GLY B 356 GLN B 363 -1 O TYR B 362 N MET B 331 SHEET 1 BD 2 ILE B 335 TYR B 337 0 SHEET 2 BD 2 GLY B 356 GLN B 363 1 O GLY B 356 N TYR B 337 SHEET 1 BE 4 VAL B 426 SER B 436 0 SHEET 2 BE 4 SER B 212 GLN B 221 -1 O SER B 212 N SER B 436 SHEET 3 BE 4 GLY B 356 GLN B 363 -1 O LEU B 357 N LEU B 219 SHEET 4 BE 4 ILE B 335 TYR B 337 1 O ILE B 335 N ALA B 358 SHEET 1 BF 4 VAL B 426 SER B 436 0 SHEET 2 BF 4 SER B 212 GLN B 221 -1 O SER B 212 N SER B 436 SHEET 3 BF 4 GLY B 356 GLN B 363 -1 O LEU B 357 N LEU B 219 SHEET 4 BF 4 MET B 331 ARG B 332 -1 O MET B 331 N TYR B 362 SHEET 1 BG 2 ARG B 406 ASN B 409 0 SHEET 2 BG 2 SER B 419 ILE B 422 -1 O LEU B 420 N VAL B 408 LINK ND2 ASN A 282 C1 NAG C 1 1555 1555 1.44 LINK ND2 ASN A 349 C1 NAG A1455 1555 1555 1.44 LINK ND2 ASN A 415 C1 NAG A1456 1555 1555 1.44 LINK ND2 ASN B 282 C1 NAG B1454 1555 1555 1.44 LINK ND2 ASN B 349 C1 NAG B1455 1555 1555 1.44 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.44 LINK NE2 HIS A 304 FE N7H A1458 1555 1555 1.89 LINK FE N7H A1458 O1 NO2 A1460 1555 1555 2.26 LINK NE2 HIS B 304 FE N7H B1456 1555 1555 1.88 LINK FE N7H B1456 O1 NO2 B1457 1555 1555 2.34 CISPEP 1 PRO A 320 PRO A 321 0 4.43 CISPEP 2 PHE A 383 PRO A 384 0 1.94 CISPEP 3 THR A 388 PRO A 389 0 -3.28 CISPEP 4 ALA B 288 GLY B 289 0 -19.77 CISPEP 5 PRO B 320 PRO B 321 0 -0.84 CISPEP 6 PHE B 383 PRO B 384 0 5.89 CISPEP 7 THR B 388 PRO B 389 0 -2.47 CRYST1 66.000 46.780 148.150 90.00 100.53 90.00 P 1 21 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.015152 0.000000 0.002816 0.00000 SCALE2 0.000000 0.021377 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006866 0.00000